Variant report

Variant	rs58977425
Chromosome Location	chr3:98681168-98681169
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs13085453	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56996908	1.00[AMR][1000 genomes]
rs57492353	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57581846	1.00[AMR][1000 genomes]
rs58345395	1.00[AMR][1000 genomes]
rs58880987	1.00[AMR][1000 genomes]
rs58988785	1.00[AMR][1000 genomes]
rs59256676	1.00[AMR][1000 genomes]
rs59462320	1.00[AMR][1000 genomes]
rs59480491	1.00[AMR][1000 genomes]
rs59581962	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59726038	1.00[AMR][1000 genomes]
rs60266120	1.00[AMR][1000 genomes]
rs60389001	1.00[AMR][1000 genomes]
rs60488063	1.00[AMR][1000 genomes]
rs60718786	1.00[AMR][1000 genomes]
rs61133181	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61172524	1.00[AMR][1000 genomes]
rs61517408	1.00[AMR][1000 genomes]
rs72923005	1.00[AMR][1000 genomes]
rs72923016	1.00[AMR][1000 genomes]
rs72923020	1.00[AMR][1000 genomes]
rs72923040	1.00[AMR][1000 genomes]
rs72923043	1.00[AMR][1000 genomes]
rs72923045	1.00[AMR][1000 genomes]
rs72923046	1.00[AMR][1000 genomes]
rs72923053	1.00[AMR][1000 genomes]
rs72923071	1.00[AMR][1000 genomes]
rs72925007	1.00[AMR][1000 genomes]
rs72925011	1.00[AMR][1000 genomes]
rs72925074	1.00[AMR][1000 genomes]
rs72925099	1.00[AMR][1000 genomes]
rs72926923	1.00[AMR][1000 genomes]
rs72926985	1.00[AMR][1000 genomes]
rs72934627	1.00[AMR][1000 genomes]
rs72934633	1.00[AMR][1000 genomes]
rs72934639	1.00[AMR][1000 genomes]
rs72934644	1.00[AMR][1000 genomes]
rs72934650	1.00[AMR][1000 genomes]
rs72934662	1.00[AMR][1000 genomes]
rs72934664	1.00[AMR][1000 genomes]
rs72934665	1.00[AMR][1000 genomes]
rs72934681	1.00[AMR][1000 genomes]
rs72934683	1.00[AMR][1000 genomes]
rs72934691	1.00[AMR][1000 genomes]
rs72936622	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936644	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936652	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936657	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936667	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936668	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936670	0.91[AFR][1000 genomes]
rs72936673	0.91[AFR][1000 genomes]
rs72936691	0.91[AFR][1000 genomes]
rs72936692	0.91[AFR][1000 genomes]
rs72936694	0.83[AFR][1000 genomes]
rs72936700	0.91[AFR][1000 genomes]
rs72938507	0.91[AFR][1000 genomes]
rs72938515	0.91[AFR][1000 genomes]
rs72938525	0.91[AFR][1000 genomes]
rs72938535	1.00[AFR][1000 genomes]
rs72938539	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72938557	1.00[AFR][1000 genomes]
rs72938573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72938584	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72938585	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72940515	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72940521	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72940528	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72940538	1.00[AMR][1000 genomes]
rs72940543	1.00[AMR][1000 genomes]
rs72940552	1.00[AMR][1000 genomes]
rs72940570	1.00[AMR][1000 genomes]
rs72940573	1.00[AMR][1000 genomes]
rs72940576	1.00[AMR][1000 genomes]
rs72940577	1.00[AMR][1000 genomes]
rs72940581	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv591065	chr3:98204198-98766326	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1007140	chr3:98421229-99202458	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv536663	chr3:98421229-99202458	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv877214	chr3:98445324-98738006	Enhancers Genic enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv1007486	chr3:98597738-99249081	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98677200-98681200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr3:98679800-98681400	Flanking Active TSS	A549	lung
3	chr3:98679800-98682400	Flanking Active TSS	NHEK	skin
4	chr3:98680000-98682400	Enhancers	HUVEC	blood vessel
5	chr3:98680600-98681400	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr3:98680600-98681600	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr3:98680800-98681400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr3:98680800-98681400	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr3:98680800-98681400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
10	chr3:98680800-98681400	Flanking Active TSS	HMEC	breast
11	chr3:98680800-98681400	Flanking Active TSS	NH-A	brain
12	chr3:98680800-98681400	Flanking Active TSS	Osteobl	bone
13	chr3:98680800-98681600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr3:98680800-98681800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr3:98680800-98682200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr3:98680800-98682400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:98681000-98681400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:98681000-98681400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:98681000-98681400	Flanking Active TSS	HSMM	muscle
20	chr3:98681000-98681400	Flanking Active TSS	NHDF-Ad	bronchial
21	chr3:98681000-98681400	Flanking Active TSS	NHLF	lung
22	chr3:98681000-98681800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr3:98681000-98681800	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr3:98681000-98682000	Enhancers	HSMMtube	muscle
25	chr3:98681000-98682400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

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